GPL20828[RGSE] - GEO DataSets

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Select item 2002540361.

miR214 regulates sex determination through gsdf in zebrafish

(Submitter supplied) Sex determination is a variable and complex mechanism, yet it can be found all over the plant and animal kingdoms. It creates two morphological different outcomes from one and the same species. Our work demonstrates the involvement of a non-coding RNA in this process for the teleost Danio rerio. Although we were not able to understand the full mechanism behind it, we can provide a piece of the puzzle, which once again highlights the complexity and flexibility of sex determination.

Organism:: Danio rerio

Type:: Expression profiling by high throughput sequencing

Platform:: GPL20828
16 Samples

Download data: TSV

Series

Accession:: GSE254036

ID:: 200254036

Select item 2001647292.

Interspecies comparison reveals Hmga1 as a key determinator of cardiac regenerative potential

(Submitter supplied) Myocardial infarction causes a massive loss of cardiomyocytes, leading to the formation of a fibrotic scar resulting in impaired cardiac function. In contrast to mammals, zebrafish display robust cardiac regeneration following injury due to the proliferation of pre-existing cardiomyocytes in the injury border zone. Here, we aim to identify transcriptomic differences that will help explain the differential cardiac regenerative capacity observed between the injured zebrafish and mammalian heart. more...

Organism:: Danio rerio

Type:: Expression profiling by high throughput sequencing

Platform:: GPL20828
7 Samples

Download data: TSV

Series

Accession:: GSE164729

ID:: 200164729

SRA Run Selector

Select item 2002192733.

Phenotype of stim2 zebrafish knockout

(Submitter supplied) Stromal interaction molecules (STIMs) are endoplasmic reticulum resident proteins that regulate Ca2+ homeostasis and signaling by store-operated calcium entry (SOCE). The different properties and functions of STIM1 and STIM2 have been described mostly based on work in vitro. Since STIM2 knockout mice do not survive till the adulthood we generated stim2a and stim2b double knockout zebrafish and characterized it. more...

Organism:: Danio rerio

Type:: Expression profiling by high throughput sequencing

Platform:: GPL20828
6 Samples

Download data: TXT

Series

Accession:: GSE219273

ID:: 200219273

Select item 2002839574.

Dose-dependent effects of dibutyl phthalate on embryonic development in zebrafish (Danio rerio): The value of integrating concentration gradients in transcriptomic analyses

(Submitter supplied) This study investigates the effects of dibutyl phthalate (DBP)—a plasticizer commonly detected in surface waters worldwide—on zebrafish (Danio rerio) embryos exposed to a concentration gradient from 0 to 120 hours post-fertilization (’protuding mouth’ stage). The primary objective was to assess the utility of integrating concentration gradients into transcriptomic analyses to uncover the mechanisms of action of environmental contaminants, such as DBP. more...

Organism:: Danio rerio

Type:: Expression profiling by high throughput sequencing

Platform:: GPL20828
15 Samples

Download data: CSV

Series

Accession:: GSE283957

ID:: 200283957

Select item 2002842145.

CFTR acts as a potential therapeutic target for attention deficit-hyperactivity disorder

(Submitter supplied) The occurrence of attention deficit-hyperactivity disorder (ADHD) symptoms in patients with cystic fibrosis (CF) is substantially higher than in the general population, and the cystic fibrosis transmembrane conductance regulator (CFTR) is the pathogenic gene of cystic fibrosis, suggesting the potentially critical role of CFTR in ADHD. Here, we identified three heterozygous missense mutations (p.E217G, p.F316L and p.T1220I) in CFTR, segregating with ADHD in two consanguineous families with 6 affected individuals. more...

Organism:: Danio rerio

Type:: Expression profiling by high throughput sequencing

Platform:: GPL20828
2 Samples

Download data: MTX, TSV

Series

Accession:: GSE284214

ID:: 200284214

Select item 2002594186.

Thymic mimetic cells in zebrafish

(Submitter supplied) We profiled the zebrafish thymus by single-cell RNA sequencing to investigate the heterogeneity of zebrafish thymic epithelial cells and determine whether similar mimetic cell populations to those found in mice and humans might also exist in the zebrafish.

Organism:: Danio rerio

Type:: Expression profiling by high throughput sequencing

Platform:: GPL20828
3 Samples

Download data: H5

Series

Accession:: GSE259418

ID:: 200259418

Select item 2002255437.

Metabolic Disruption in Zebrafish Larvae Due to Exposure to the Pesticides Tefluthrin or Acetochlor

(Submitter supplied) This study investigates the pesticides' (Tefluthrin or Acetochlor) effects on gene expression

Organism:: Danio rerio

Type:: Expression profiling by high throughput sequencing

Platform:: GPL20828
15 Samples

Download data: TXT

Series

Accession:: GSE225543

ID:: 200225543

PubMed

Select item 2001982208.

Profiling the cancer-prone microenvironment in a zebrafish model for MPNST

(Submitter supplied) Microenvironmental contributions to soft tissue sarcoma progression are relatively undefined, particularly in the context of sarcoma onset. Use of animal models to reveal these contributions is impeded by (1) the difficulty in discriminating between microenvironmental, precancerous, and cancer cells; and (2) the challenge in defining a precancerous microenvironment. We developed a zebrafish model that allows segregation of microenvironmental, precancerous, and cancerous cell populations by fluorescence-activated cell sorting. more...

Organism:: Danio rerio

Type:: Expression profiling by high throughput sequencing

Platform:: GPL20828
17 Samples

Download data: CSV

Series

Accession:: GSE198220

ID:: 200198220

Select item 2002413909.

Interspecies comparison reveals Hmga1 as driver of cardiac regeneration [scRNA-seq]

(Submitter supplied) The prospect of repairing the heart after a myocardial infarction by promoting cardiomyocyte proliferation has gained momentum from studies showing the heart's regenerative ability in fish, amphibians and neonatal mammals. Despite evidence of varying cardiomyocyte proliferation rates among species, the molecular mechanisms driving cardiomyocyte cell cycle re-entry remain insufficiently understood. In this study, we employed spatial transcriptomics and identified high-mobility group AT-hook 1a (Hmga1a) as being upregulated in cardiomyocytes of the injury border zone in zebrafish, but not in mice. more...

Organism:: Danio rerio

Type:: Expression profiling by high throughput sequencing

Platform:: GPL20828
7 Samples

Download data: TSV, XLSX

Series

Accession:: GSE241390

ID:: 200241390

Select item 20024115910.

Interspecies comparison reveals Hmga1 as driver of cardiac regeneration

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:: Danio rerio; Mus musculus

Type:: Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing

4 related Platforms
42 Samples

Download data: BW, CSV, TSV

Series

Accession:: GSE241159

ID:: 200241159

Select item 20024115711.

Interspecies comparison reveals Hmga1 as driver of cardiac regeneration [bulk RNAseq Hmga1a OE]

Organism:: Danio rerio

Type:: Expression profiling by high throughput sequencing

Platform:: GPL20828
8 Samples

Download data: TSV, XLSX

Series

Accession:: GSE241157

ID:: 200241157

Select item 20024115612.

Interspecies comparison reveals Hmga1 as driver of cardiac regeneration [TOMOseq mouse and zebrafish]

Organism:: Mus musculus; Danio rerio

Type:: Expression profiling by high throughput sequencing

Platforms:: GPL20828 GPL19057
14 Samples

Download data: CSV, XLSX

Series

Accession:: GSE241156

ID:: 200241156

Select item 20026923213.

Positional information drives distinct traits in transcriptomically identified neuronal types

(Submitter supplied) We transcriptionally profiled the neuronal types of the zebrafish larvae optic tectum and matched them with their functional and morphological properties.

Organism:: Danio rerio

Type:: Expression profiling by high throughput sequencing

Platforms:: GPL24995 GPL20828
17 Samples

Download data: MTX, TSV

Series

Accession:: GSE269232

ID:: 200269232

Select item 20027917014.

Zebrafish are resilient to the loss of major diacylglycerol acyltransferase enzymes

(Submitter supplied) In zebrafish, maternally deposited yolk is the source of nutrients for embryogenesis prior to digestive system maturation. Yolk nutrients are processed and secreted to the growing organism by an extra-embryonic tissue, the yolk syncytial layer (YSL). Export of lipid from the YSL occurs through the production of triacylglycerol-rich lipoproteins. Here we report that mutations in the triacylglycerol synthesis enzyme, diacylglycerol acyltransferase-2 (Dgat2), cause yolk sac opacity due to aberrant accumulation of cytoplasmic lipid droplets in the YSL. more...

Organism:: Danio rerio

Type:: Expression profiling by high throughput sequencing

Platform:: GPL20828
6 Samples

Download data: TSV

Series

Accession:: GSE279170

ID:: 200279170

Select item 20026431215.

Loss of Stim2 in zebrafish induces retinal gene expression cellular changes resembling glaucoma characteristics.

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:: Danio rerio

Type:: Expression profiling by high throughput sequencing

Platforms:: GPL20828 GPL25922
10 Samples

Download data: MTX, TSV

Series

Accession:: GSE264312

ID:: 200264312

PubMed

Select item 20026430916.

Loss of Stim2 in zebrafish induces retinal gene expression cellular changes resembling glaucoma characteristics [RNA-seq]

(Submitter supplied) Calcium is involved in vision processes in retina and is implicated in various pathologies including glaucoma. Rods are protected against prolonged lowering of intracellular calcium ion concentrations by Store Operated Calcium Entry (SOCE). We showed zebrafish lacking SOCE calcium sensor Stim2 had problem with vision as indicated by behavior tests, staining of retina and downregulation of genes related to light perception. more...